Complete the following general function checklist to verify that the Search subsystem is operating as expected.
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General Function Checklist
- Open the H_sapiens_Dec_2013 genome.
- Type dmd in the Quick-search box.Verify that "DMD"
- DMD is one of the suggested matches in the Quick-search drop-down.
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- Mac
- Linux
- Windows
Select
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DMD
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from the Quick-search drop-down to navigate to the longest known gene in the human genome, the dystrophin gene (DMD).
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- IGB has navigated to the proper gene (dystrophin). You can do this by viewing the selection info for the gene. The gene's title should be "DMD"
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- .
*(Known issue. See IGBF-2625).
- Mac
- Linux
- Windows
Select the Advanced Search tab
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at the bottom of IGB.
- Search results for
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- DMD
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- are already being displayed in the tab.
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- Mac
- Linux
- Windows
Select the top search result in the Advanced Search tab (ID:
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NM_001166237
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, Title:
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GSDMD
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).
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- IGB has navigated to
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- NM_001166237
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- in the gene
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- GSDMD
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- .
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- Mac
- Linux
- Windows
Navigate to the following coordinates: chr1:30,688,740-31,361,080
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- IGB has navigated to the proper location.
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- Mac
- Linux
- Windows
- In the Advanced Search tab at the bottom IGB, select Residues from the search type drop-down menu.
- Enter "TAG|TAA|TGA" into the Advanced Search textbox and start the search.
- Verify that the search has located matches for "TAG", "TAA", and "TGA".
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- Mac
- Linux
- Windows
Navigate to the following coordinates: chr1:30,992,236-30,992,279
- Residues have been highlighted on the sequence axis
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User Guide
- Verify that the relevant page in the Users Guide (Advanced Search) appears accurate and up-to-date.
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The general function checklist for the Search subsystem has been completed.
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- .
- Mac
- Linux
- Windows
- Navigate to the following coordinates: chr1:30,688,740-31,361,080
- In the Advanced Search tab at the bottom of IGB, select Residues from the search type drop-down menu.
- Enter the following regular expressions (Note - clear the search results between each search (click the red X)):
- TATATttatg
- TATA.ttatg
- TATA..tatg
- TAT[AT]Tttatg
- [TA]{1,3}Tttatg
- TATAt*atg
- TATAT.*ttatg
- TATAT.*?ttatg
- Results show up for each search conducted above.
- Mac
- Linux
- Windows
- In the Advanced Search tab, select Properties from the search type drop-down menu.
- Enter false in the search text box.
- There are many results and if you select one (double-click it) and go to the Selection Info panel, there is at least one attribute that has the value false.
- Mac
- Linux
- Windows
Enter family in the search text box.
- There are many results and all include the word family in the description. If not, check the selection info panel.
- Mac
- Linux
- Windows